strandCheckR (original) (raw)

This is the released version of strandCheckR; for the devel version, seestrandCheckR.

Calculate strandness information of a bam file

Bioconductor version: Release (3.21)

This package aims to quantify and remove putative double strand DNA from a strand-specific RNA sample. There are also options and methods to plot the positive/negative proportions of all sliding windows, which allow users to have an idea of how much the sample was contaminated and the appropriate threshold to be used for filtering.

Author: Thu-Hien To [aut, cre], Stevie Pederson [aut] ORCID: 0000-0001-8197-3303

Maintainer: Thu-Hien To

Citation (from within R, enter citation("strandCheckR")):

Installation

To install this package, start R (version "4.5") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("strandCheckR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("strandCheckR")

Details

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Follow Installation instructions to use this package in your R session.